Amber Archive Oct 2022 by thread
- [AMBER] ValueError in MCPB.py at step 3 Dr. Vaibhav Anil Dixit via AMBER (Sat Oct 01 2022 - 22:56:29 PDT)
- [AMBER] New, sander based real life lmod examples Istvan Kolossvary via AMBER (Sun Oct 02 2022 - 19:42:18 PDT)
- Re: [AMBER] NUMEXTRA Error Sally Pias via AMBER (Mon Oct 03 2022 - 12:12:19 PDT)
- [AMBER] AMBER22 installation on Linux Azurmendi, Hugo via AMBER (Mon Oct 03 2022 - 14:52:34 PDT)
- [AMBER] survival or residence time angad sharma via AMBER (Mon Oct 03 2022 - 23:44:57 PDT)
- [AMBER] How to concatenate long trajs in a decent time Giulia Sormani via AMBER (Tue Oct 04 2022 - 02:26:04 PDT)
- [AMBER] MMGBSA with Mn2+ ions Rafał Madaj via AMBER (Tue Oct 04 2022 - 03:21:15 PDT)
- [AMBER] problem with MMPBSA.py (and/or ante-MMPBSA.py) Artur Hermano via AMBER (Tue Oct 04 2022 - 05:55:34 PDT)
- [AMBER] bar-graph of the hydrogen bonds fraction using xm-grace Enrico Martinez via AMBER (Tue Oct 04 2022 - 06:16:46 PDT)
- [AMBER] Running the TI code on a single residue results in NaN electrostatics Miroslav Suruzhon via AMBER (Tue Oct 04 2022 - 07:00:02 PDT)
- [AMBER] Error in generating parameters for BMT residue in Cyclosporin and Leap Error in Bond command Suchetana Gupta via AMBER (Wed Oct 05 2022 - 12:59:49 PDT)
- [AMBER] ANTECHAMBER: parametrization of charged ligand Enrico Martinez via AMBER (Thu Oct 06 2022 - 07:38:44 PDT)
- [AMBER] How to add gaff parameters to PARMCHK.DAT file Jiaan Zhu via AMBER (Thu Oct 06 2022 - 09:35:49 PDT)
- [AMBER] Phase space overlap questions in alchemical free energy calculations Liao via AMBER (Thu Oct 06 2022 - 21:30:05 PDT)
- [AMBER] parameterization for non-standard nucleotide Moustafa, Ibrahim M. via AMBER (Sat Oct 08 2022 - 13:09:01 PDT)
- [AMBER] Ambermd data erasure request - from Priya Dey - request: UFO3NP7F mmv.priya.dey--- via AMBER (Mon Oct 10 2022 - 11:17:00 PDT)
- [AMBER] Question about h-bond analysis via cpptraj Enrico Martinez via AMBER (Wed Oct 12 2022 - 08:54:12 PDT)
- [AMBER] PLUMED misformatted output file Tucker Burgin via AMBER (Wed Oct 12 2022 - 09:42:50 PDT)
- [AMBER] using MCPB.py ışılay öztürk via AMBER (Wed Oct 12 2022 - 14:12:58 PDT)
- [AMBER] problem regarding "change" command Saikat Pal via AMBER (Wed Oct 12 2022 - 16:35:15 PDT)
- [AMBER] Question about sasa values Sayan Poddar via AMBER (Thu Oct 13 2022 - 01:45:58 PDT)
- [AMBER] Separation of protein and ligand during TI simulation. Fanyu Zhao via AMBER (Thu Oct 13 2022 - 06:20:35 PDT)
- [AMBER] Amber22 on Red Hat Enterprise Linux 8 Carlos Navarro via AMBER (Thu Oct 13 2022 - 07:05:38 PDT)
- [AMBER] Multidihedral, average, lost residue numbers Rosellen, Martin via AMBER (Thu Oct 13 2022 - 07:33:14 PDT)
- [AMBER] MCPB.py Failing with OPC water? Gustavo Seabra via AMBER (Thu Oct 13 2022 - 14:29:47 PDT)
- [AMBER] RTX4090 Benchmarks Ross Walker via AMBER (Fri Oct 14 2022 - 08:48:47 PDT)
- [AMBER] glycam web server Moustafa, Ibrahim M. via AMBER (Fri Oct 14 2022 - 15:11:21 PDT)
- [AMBER] CpHMD and Umbrella sampling Dulal Mondal via AMBER (Fri Oct 14 2022 - 22:55:49 PDT)
- [AMBER] MCPB, wrong bonding pair Matthew Guberman-Pfeffer via AMBER (Sat Oct 15 2022 - 08:42:31 PDT)
- [AMBER] "autoimage" function of cpptraj and holding molecule steady Cenk Andac via AMBER (Sat Oct 15 2022 - 12:15:34 PDT)
- [AMBER] Unsubsrcibe Matthew Noto via AMBER (Sat Oct 15 2022 - 13:02:48 PDT)
- [AMBER] mdl file for OPC water model Weronika Bagrowska via AMBER (Sat Oct 15 2022 - 16:29:13 PDT)
- Re: [AMBER] Amber22, no DV/DL value with option gti_lam_sch Domenico Marson via AMBER (Sun Oct 16 2022 - 08:38:53 PDT)
- [AMBER] Issues concerning keyboard on xleap interface Frederico Henrique Ferreira via AMBER (Sun Oct 16 2022 - 13:55:04 PDT)
- [AMBER] clustering trajectories based on RMSD cut-off Sorin Draga via AMBER (Mon Oct 17 2022 - 01:49:42 PDT)
- [AMBER] Dihedral PCA Cluster Plot Suchetana Gupta via AMBER (Mon Oct 17 2022 - 06:48:06 PDT)
- Re: [AMBER] Antechamber with QM software other than Gaussian Shiji Zhao via AMBER (Tue Oct 18 2022 - 00:34:17 PDT)
- [AMBER] GaMD dihedral boosting Amber18 Martin Juhás via AMBER (Tue Oct 18 2022 - 00:54:45 PDT)
- [AMBER] Ion counting angad sharma via AMBER (Tue Oct 18 2022 - 03:25:44 PDT)
- [AMBER] AmberTools installation issue MacOS Xavier Brazzolotto via AMBER (Tue Oct 18 2022 - 04:22:30 PDT)
- [AMBER] AmberTools22 installation compilation file comparisons failed wy202210192022 via AMBER (Tue Oct 18 2022 - 23:45:52 PDT)
- [AMBER] Forcing a Peptide to be Helical Cianna Calia via AMBER (Wed Oct 19 2022 - 20:49:40 PDT)
- [AMBER] Parameterization of magnesium ions binding site using MCPB.py Huang ZiJian via AMBER (Wed Oct 19 2022 - 21:24:43 PDT)
- [AMBER] mmpbsa.py: error in the decomposition Enrico Martinez via AMBER (Thu Oct 20 2022 - 02:19:48 PDT)
- [AMBER] Abrupt temperature rise carrying out Transition path sampling Divya Rai via AMBER (Thu Oct 20 2022 - 11:14:03 PDT)
- [AMBER] AMBER GPU version: Segfault error with 12-6-4 parameters Jafari, Majid via AMBER (Thu Oct 20 2022 - 11:41:07 PDT)
- [AMBER] Help in Standardizing NEB Aravind R via AMBER (Thu Oct 20 2022 - 23:18:40 PDT)
- [AMBER] amber-subscribe Aravind R via AMBER (Fri Oct 21 2022 - 04:28:28 PDT)
- [AMBER] How to restraint proteins to an axis Matthew Guberman-Pfeffer via AMBER (Fri Oct 21 2022 - 13:53:21 PDT)
- [AMBER] tiMerge error with ff19SB jinfeng liu via AMBER (Sat Oct 22 2022 - 00:43:48 PDT)
- [AMBER] co-alchemical ion Pietro Vidossich via AMBER (Sun Oct 23 2022 - 01:24:12 PDT)
- [AMBER] MCPB: How to make a larger "small model" Matthew Guberman-Pfeffer via AMBER (Sun Oct 23 2022 - 15:26:13 PDT)
- [AMBER] Some questiones about Gaussian/Amber QM/MM simulation 张兴赫 via AMBER (Sun Oct 23 2022 - 21:09:37 PDT)
- [AMBER] Energy distribution check for REAF simulation kurisaki2013--- via AMBER (Mon Oct 24 2022 - 00:13:53 PDT)
- [AMBER] mmpbsa problem with OPC waters Antonija Tomić via AMBER (Mon Oct 24 2022 - 04:15:42 PDT)
- [AMBER] RESTRAINT versus NMR restraint in output? Matthew Guberman-Pfeffer via AMBER (Mon Oct 24 2022 - 05:51:51 PDT)
- [AMBER] How to restrain minimum distance between proteins? Matthew Guberman-Pfeffer via AMBER (Mon Oct 24 2022 - 21:11:15 PDT)
- [AMBER] ERROR while using receptor_mask in MMPBSA Amit Sharma \(Asstt. Prof., MCARS\) via AMBER (Tue Oct 25 2022 - 01:05:24 PDT)
- [AMBER] Amber 22 serial installation on ubuntu-18.04 without GPU support Dulal Mondal via AMBER (Tue Oct 25 2022 - 23:12:37 PDT)
- [AMBER] amber Computational problem Ding Shuaiwei via AMBER (Wed Oct 26 2022 - 21:23:06 PDT)
- [AMBER] Umbrella Sampling at constant pH using amber 22 Dulal Mondal via AMBER (Thu Oct 27 2022 - 10:19:56 PDT)
- [AMBER] 你好amber@ambermd.org你好 3163490855--- via AMBER (Fri Oct 28 2022 - 01:28:19 PDT)
- [AMBER] Simulation of ssDNA folding Jiaan Zhu via AMBER (Sun Oct 30 2022 - 07:54:12 PDT)
- [AMBER] Occupancy calculation angad sharma via AMBER (Sun Oct 30 2022 - 14:45:15 PDT)
- [AMBER] Amber22 GPU installation fails while building NVCC object `pmemd_xray_cuda_generated_BulkMaskGPU.cu.o` Nitin Kulhar via AMBER (Mon Oct 31 2022 - 00:53:35 PDT)
- [AMBER] I implore you to fix the problem regarding MMPBSA analysis Subramanian Boopathi via AMBER (Mon Oct 31 2022 - 08:25:42 PDT)
- [AMBER] Thermostat Question Matthew Guberman-Pfeffer via AMBER (Mon Oct 31 2022 - 10:54:10 PDT)
- [AMBER] Problem: Minimization and TI Matthew Guberman-Pfeffer via AMBER (Mon Oct 31 2022 - 18:19:56 PDT)
- [AMBER] C4 terms in 12-6-4LJ model Sara Mahmoud via AMBER (Mon Oct 24 2022 - 03:37:10 PDT)
- [AMBER] Help in Standardizing NEB Aravind R via AMBER (Thu Oct 20 2022 - 00:12:13 PDT)
- [AMBER] Best force field and water model for amyloid study maryam ghorbaninia via AMBER (Sun Oct 16 2022 - 15:46:30 PDT)
- Last message date: Tue Nov 08 2022 - 13:30:05 PST
- Archived on: Wed Dec 25 2024 - 05:56:13 PST
